Rh5AG246400

The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0015195
Physical Location & Seq
Reverse (-)
30474616 .. 30477598
2983 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG246400.1

Sequence Viewer

Length: 780 bp
ATGGCCTCCATGCTTATGGCAGCAACTGCTAGCACCAGCACTCTTCTTAGACCAAACTCCAACTCTCTTAGGGATGTTGTCCCCATGGGACCTGGGAAATACACCATGGGGAATGAGTTGTGGTATGGACCAGACAGAGTGAAGTACTTGGGACCCTTTTCTGCTCAGACTCCTTCATACCTCACCGGAGAATTCCCCGGTGACTACGGATGGGACACCGCAGGGTTGTCAGCTGACCCAGAGGCCTTCGCTAAGAACAGGGCTCTTGAGGTTATCCACGGACGGTGGGCAATGCTCGGCGCATTTGGCTGCATCACCCCAGAAGTTCTTGAGAAATGGGTGAGAGTGGACTTCAAAGAACCAGTCTGGTTCAAAGCCGGGGCTCAGATTTTCTCAGAAGGTGGTCTTGACTATTTAGGAAACCCCAACCTTGTCCACGCTCAGAGCATCCTAGCAGTTCTTGGCTCCCAGGTCGTTCTCATGGGGCTTGTTGAGGGATTCCGAATCAACGGCCTAGATGGAGTTGGAGAGGGCAATGATCTGTACCCCGGCGGCCAATACTTTGACCCACTGGGCCTTGCTGATGACCCTGTCACATTTGCTGAGCTCAAGGTGAAGGAGATCAAGAATGGGAGACTAGCCATGTTCGCCATGTTTGGTTTCTTTGTCCAAGCCATTGTCACTGGAAAAGGTCCTCTAGAGAACGTCTTGGACCATCTTGACAACCCTGTAGCCAACAATGCTTGGGTCTACGCCACCAAGTTTGTGCCTGGATCGTAA

Protein Analysis

259

Amino Acids

28.02

Weight (kDa)

4.89

Isoelectric Point (pI)

17.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 58 - 226 2.9e-51 Chlorophyll A-B binding protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0015195)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G54270
fragaria_vesca FvH4_3g21020
malus_domestica MD03G1218900.v1.1 MD11G1236900.v1.1
prunus_persica Prupe.4G190500_v2.0.a1
pyrus_communis pycom03g16800 pycom11g20830
rosa_chinensis RchiOBHm_Chr5g0036051
rosa_laevigata RLG00000033661
rosa_multiflora Rmu_sc0001493.1_g000005
rosa_roxburghii Rroxscaffold_1G00044710
rosa_rugosa Rorug05G0152000
rosa_samantha Rh5AG246400 Rh5BG246700 Rh5DG255100
rosa_wichuraiana Rw5G022620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 750
AciI CCGC 2 cut(s) 219, 552
AcoI YGGCCR 1 cut(s) 553
AcsI RAATTY 1 cut(s) 191
AfaI GTAC 2 cut(s) 146, 545
AgsI TTSAA 2 cut(s) 355, 373
AjnI CCWGG 3 cut(s) 91, 468, 769
AluBI AGCT 2 cut(s) 233, 607
AluI AGCT 2 cut(s) 233, 607
Alw21I GWGCWC 1 cut(s) 609
Alw26I GTCTC 1 cut(s) 628
AlwNI CAGNNNCTG 1 cut(s) 26
AoxI GGCC 5 cut(s) 3, 243, 511, 553, 574
ApeKI GCWGC 2 cut(s) 20, 309
ApoI RAATTY 1 cut(s) 191
ArsI GACNNNNNNTTYG 2 cut(s) 348, 380
AspLEI GCGC 1 cut(s) 302
AspS9I GGNCC 6 cut(s) 89, 128, 152, 574, 692, 712
AsuC2I CCSGG 3 cut(s) 198, 379, 549
AsuHPI GGTGA 5 cut(s) 175, 212, 307, 352, 625
AsuNHI GCTAGC 1 cut(s) 29
AvaII GGWCC 5 cut(s) 89, 128, 152, 692, 712
BanII GRGCYC 3 cut(s) 265, 385, 609
Bbv12I GWGCWC 1 cut(s) 609
BbvI GCAGC 2 cut(s) 32, 296
BccI CCATC 3 cut(s) 204, 512, 723
BceAI ACGGC 1 cut(s) 526
BciT130I CCWGG 3 cut(s) 93, 470, 771
BcnI CCSGG 3 cut(s) 198, 379, 549
BcoDI GTCTC 1 cut(s) 628
BfaI CTAG 5 cut(s) 30, 452, 515, 638, 698
BfmI CTRYAG 1 cut(s) 729
BisI GCNGC 3 cut(s) 21, 310, 553
BlpI GCTNAGC 1 cut(s) 603
BlsI GCNGC 3 cut(s) 22, 311, 554
BmcAI AGTACT 1 cut(s) 146
Bme1390I CCNGG 6 cut(s) 93, 198, 379, 470, 549, 771
Bme18I GGWCC 5 cut(s) 89, 128, 152, 692, 712
BmgT120I GGNCC 6 cut(s) 89, 128, 152, 574, 692, 712
BmiI GGNNCC 4 cut(s) 90, 153, 154, 466
BmrFI CCNGG 6 cut(s) 93, 198, 379, 470, 549, 771
BmrI ACTGGG 1 cut(s) 581
BmsI GCATC 2 cut(s) 321, 456
BmtI GCTAGC 1 cut(s) 33
BmuI ACTGGG 1 cut(s) 581
Bpu1102I GCTNAGC 1 cut(s) 603
BpuEI CTTGAG 3 cut(s) 287, 350, 593
BpuMI CCSGG 3 cut(s) 198, 379, 549
BsaJI CCNNGG 8 cut(s) 84, 92, 105, 196, 277, 378, 468, 547
BsaWI WCCGGW 1 cut(s) 185
Bse1I ACTGG 3 cut(s) 362, 576, 688
Bse3DI GCAATG 2 cut(s) 297, 541
BseBI CCWGG 3 cut(s) 93, 470, 771
BseDI CCNNGG 8 cut(s) 84, 92, 105, 196, 277, 378, 468, 547
BseGI GGATG 3 cut(s) 79, 215, 447
BseMI GCAATG 2 cut(s) 297, 541
BseMII CTCAG 5 cut(s) 179, 398, 408, 455, 594
BseNI ACTGG 3 cut(s) 362, 576, 688
BseXI GCAGC 2 cut(s) 32, 296
BshFI GGCC 5 cut(s) 5, 245, 513, 555, 576
BsiHKAI GWGCWC 1 cut(s) 609
BsiSI CCGG 4 cut(s) 186, 198, 378, 549
BslFI GGGAC 4 cut(s) 65, 102, 165, 227
BsmAI GTCTC 1 cut(s) 628
BsmFI GGGAC 4 cut(s) 65, 102, 165, 227
BsnI GGCC 5 cut(s) 5, 245, 513, 555, 576
Bsp1286I GDGCHC 3 cut(s) 265, 385, 609
Bsp143I GATC 3 cut(s) 538, 621, 773
Bsp1720I GCTNAGC 1 cut(s) 603
Bsp19I CCATGG 2 cut(s) 84, 105
BspACI CCGC 2 cut(s) 219, 552
BspANI GGCC 5 cut(s) 5, 245, 513, 555, 576
BspCNI CTCAG 5 cut(s) 178, 397, 407, 454, 595
BspLI GGNNCC 4 cut(s) 90, 153, 154, 466
BspOI GCTAGC 1 cut(s) 33
BsrDI GCAATG 2 cut(s) 297, 541
BsrI ACTGG 3 cut(s) 362, 576, 688
BssECI CCNNGG 8 cut(s) 84, 92, 105, 196, 277, 378, 468, 547
BssMI GATC 3 cut(s) 538, 621, 773
BssT1I CCWWGG 2 cut(s) 84, 105
Bst2UI CCWGG 3 cut(s) 93, 470, 771
Bst4CI ACNGT 1 cut(s) 285
Bst6I CTCTTC 1 cut(s) 48
BstAPI GCANNNNNTGC 1 cut(s) 26
BstC8I GCNNGC 1 cut(s) 31
BstDEI CTNAG 8 cut(s) 47, 68, 165, 252, 384, 394, 441, 603
BstDSI CCRYGG 3 cut(s) 84, 105, 277
BstF5I GGATG 3 cut(s) 79, 215, 447
BstHHI GCGC 1 cut(s) 302
BstKTI GATC 3 cut(s) 541, 624, 776
BstMAI GTCTC 1 cut(s) 628
BstMBI GATC 3 cut(s) 538, 621, 773
BstMWI GCNNNNNNNGC 4 cut(s) 26, 306, 647, 740
BstNI CCWGG 3 cut(s) 93, 470, 771
BstSCI CCNGG 6 cut(s) 91, 196, 377, 468, 547, 769
BstSFI CTRYAG 1 cut(s) 729
BstV1I GCAGC 2 cut(s) 32, 296
BstXI CCANNNNNNTGG 1 cut(s) 16
BsuRI GGCC 5 cut(s) 5, 245, 513, 555, 576
BtgI CCRYGG 3 cut(s) 84, 105, 277
BtsCI GGATG 3 cut(s) 79, 215, 447
BtsIMutI CAGTG 2 cut(s) 569, 681
Cac8I GCNNGC 1 cut(s) 31
CaiI CAGNNNCTG 1 cut(s) 26
CfoI GCGC 1 cut(s) 302
Cfr13I GGNCC 6 cut(s) 89, 128, 152, 574, 692, 712
Csp6I GTAC 2 cut(s) 145, 544
CspCI CAANNNNNGTGG 2 cut(s) 745, 780
CviAII CATG 6 cut(s) 10, 85, 106, 481, 643, 652
CviQI GTAC 2 cut(s) 145, 544
DdeI CTNAG 8 cut(s) 47, 68, 165, 252, 384, 394, 441, 603
DpnI GATC 3 cut(s) 540, 623, 775
DpnII GATC 3 cut(s) 538, 621, 773
EaeI YGGCCR 1 cut(s) 553
Eam1104I CTCTTC 1 cut(s) 48
EarI CTCTTC 1 cut(s) 48
Ecl136II GAGCTC 1 cut(s) 607
Eco130I CCWWGG 2 cut(s) 84, 105
Eco147I AGGCCT 1 cut(s) 245
Eco24I GRGCYC 3 cut(s) 265, 385, 609
Eco47I GGWCC 5 cut(s) 89, 128, 152, 692, 712
Eco53kI GAGCTC 1 cut(s) 607
EcoICRI GAGCTC 1 cut(s) 607
EcoO109I RGGNCCY 3 cut(s) 89, 152, 692
EcoRI GAATTC 1 cut(s) 191
EcoRII CCWGG 3 cut(s) 91, 468, 769
EcoT14I CCWWGG 2 cut(s) 84, 105
EcoT38I GRGCYC 3 cut(s) 265, 385, 609
ErhI CCWWGG 2 cut(s) 84, 105
FaeI CATG 6 cut(s) 13, 88, 109, 484, 646, 655
FaiI YATR 9 cut(s) 11, 17, 86, 107, 126, 178, 482, 644, 653
FalI AAGNNNNNCTT 2 cut(s) 390, 422
FaqI GGGAC 4 cut(s) 65, 102, 165, 227
FatI CATG 6 cut(s) 9, 84, 105, 480, 642, 651
FblI GTMKAC 1 cut(s) 750
Fnu4HI GCNGC 3 cut(s) 21, 310, 553
FokI GGATG 3 cut(s) 86, 222, 434
FriOI GRGCYC 3 cut(s) 265, 385, 609
Fsp4HI GCNGC 3 cut(s) 21, 310, 553
FspBI CTAG 5 cut(s) 30, 452, 515, 638, 698
GlaI GCGC 1 cut(s) 301
GluI GCNGC 3 cut(s) 21, 310, 553
HaeIII GGCC 5 cut(s) 5, 245, 513, 555, 576
HapII CCGG 4 cut(s) 186, 198, 378, 549
HhaI GCGC 1 cut(s) 302
Hin1II CATG 6 cut(s) 13, 88, 109, 484, 646, 655
Hin6I GCGC 1 cut(s) 300
HinP1I GCGC 1 cut(s) 300
HinfI GANTC 3 cut(s) 169, 498, 504
HpaII CCGG 4 cut(s) 186, 198, 378, 549
HphI GGTGA 5 cut(s) 175, 212, 307, 352, 625
Hpy166II GTNNAC 3 cut(s) 349, 436, 751
Hpy188I TCNGA 5 cut(s) 168, 387, 397, 444, 503
Hpy188III TCNNGA 6 cut(s) 266, 329, 407, 625, 698, 719
Hpy8I GTNNAC 3 cut(s) 349, 436, 751
HpyAV CCTTC 4 cut(s) 183, 256, 392, 610
HpyCH4III ACNGT 1 cut(s) 285
HpyCH4IV ACGT 1 cut(s) 705
HpyCH4V TGCA 1 cut(s) 312
HpyF10VI GCNNNNNNNGC 4 cut(s) 26, 306, 647, 740
HpyF3I CTNAG 8 cut(s) 47, 68, 165, 252, 384, 394, 441, 603
HpySE526I ACGT 1 cut(s) 705
Hsp92II CATG 6 cut(s) 13, 88, 109, 484, 646, 655
HspAI GCGC 1 cut(s) 300
KflI GGGWCCC 1 cut(s) 152
Kzo9I GATC 3 cut(s) 538, 621, 773
LmnI GCTCC 1 cut(s) 470
Lsp1109I GCAGC 2 cut(s) 32, 296
LweI GCATC 2 cut(s) 321, 456
MaeI CTAG 5 cut(s) 30, 452, 515, 638, 698
MaeII ACGT 1 cut(s) 705
MaeIII GTNAC 3 cut(s) 200, 592, 679
MalI GATC 3 cut(s) 540, 623, 775
MboI GATC 3 cut(s) 538, 621, 773
MboII GAAGA 1 cut(s) 35
MhlI GDGCHC 3 cut(s) 265, 385, 609
MluCI AATT 1 cut(s) 191
MlyI GAGTC 1 cut(s) 163
MmeI TCCRAC 2 cut(s) 84, 505
MnlI CCTC 7 cut(s) 16, 191, 235, 262, 487, 523, 705
MslI CAYNNNNRTG 1 cut(s) 14
MspA1I CMGCKG 1 cut(s) 233
MspI CCGG 4 cut(s) 186, 198, 378, 549
MspR9I CCNGG 6 cut(s) 93, 198, 379, 470, 549, 771
MvaI CCWGG 3 cut(s) 93, 470, 771
MwoI GCNNNNNNNGC 4 cut(s) 26, 306, 647, 740
NciI CCSGG 3 cut(s) 198, 379, 549
NcoI CCATGG 2 cut(s) 84, 105
NdeII GATC 3 cut(s) 538, 621, 773
NheI GCTAGC 1 cut(s) 29
NlaIII CATG 6 cut(s) 13, 88, 109, 484, 646, 655
NlaIV GGNNCC 4 cut(s) 90, 153, 154, 466
NmeAIII GCCGAG 1 cut(s) 276
NmuCI GTSAC 3 cut(s) 200, 592, 679
PceI AGGCCT 1 cut(s) 245
PfeI GAWTC 2 cut(s) 498, 504
PflFI GACNNNGTC 1 cut(s) 590
PkrI GCNGC 3 cut(s) 22, 311, 554
PleI GAGTC 1 cut(s) 163
PpsI GAGTC 1 cut(s) 163
PpuMI RGGWCCY 3 cut(s) 89, 152, 692
Psp124BI GAGCTC 1 cut(s) 609
Psp5II RGGWCCY 3 cut(s) 89, 152, 692
Psp6I CCWGG 3 cut(s) 91, 468, 769
PspGI CCWGG 3 cut(s) 91, 468, 769
PspN4I GGNNCC 4 cut(s) 90, 153, 154, 466
PspPI GGNCC 6 cut(s) 89, 128, 152, 574, 692, 712
PspPPI RGGWCCY 3 cut(s) 89, 152, 692
PstNI CAGNNNCTG 1 cut(s) 26
PsyI GACNNNGTC 1 cut(s) 590
PvuII CAGCTG 1 cut(s) 233
RsaI GTAC 2 cut(s) 146, 545
RsaNI GTAC 2 cut(s) 145, 544
RseI CAYNNNNRTG 1 cut(s) 14
SacI GAGCTC 1 cut(s) 609
SatI GCNGC 3 cut(s) 21, 310, 553
Sau3AI GATC 3 cut(s) 538, 621, 773
Sau96I GGNCC 6 cut(s) 89, 128, 152, 574, 692, 712
ScaI AGTACT 1 cut(s) 146
SchI GAGTC 1 cut(s) 163
ScrFI CCNGG 6 cut(s) 93, 198, 379, 470, 549, 771
SduI GDGCHC 3 cut(s) 265, 385, 609
SfaNI GCATC 2 cut(s) 321, 456
SfcI CTRYAG 1 cut(s) 729
SinI GGWCC 5 cut(s) 89, 128, 152, 692, 712
SmiMI CAYNNNNRTG 1 cut(s) 14
SmlI CTYRAG 3 cut(s) 266, 329, 608
SmoI CTYRAG 3 cut(s) 266, 329, 608
Sse9I AATT 1 cut(s) 191
SseBI AGGCCT 1 cut(s) 245
SsiI CCGC 2 cut(s) 219, 552
SspMI CTAG 5 cut(s) 30, 452, 515, 638, 698
SstI GAGCTC 1 cut(s) 609
StuI AGGCCT 1 cut(s) 245
StyD4I CCNGG 6 cut(s) 91, 196, 377, 468, 547, 769
StyI CCWWGG 2 cut(s) 84, 105
TaaI ACNGT 1 cut(s) 285
TaiI ACGT 1 cut(s) 708
TasI AATT 1 cut(s) 191
TatI WGTACW 1 cut(s) 144
TauI GCSGC 1 cut(s) 555
TfiI GAWTC 2 cut(s) 498, 504
TscAI CASTG 2 cut(s) 576, 688
TseFI GTSAC 3 cut(s) 200, 592, 679
TseI GCWGC 2 cut(s) 20, 309
Tsp45I GTSAC 3 cut(s) 200, 592, 679
TspDTI ATGAA 1 cut(s) 165
TspGWI ACGGA 2 cut(s) 222, 294
TspRI CASTG 2 cut(s) 576, 688
Tth111I GACNNNGTC 1 cut(s) 590
VpaK11BI GGWCC 5 cut(s) 89, 128, 152, 692, 712
XapI RAATTY 1 cut(s) 191
XbaI TCTAGA 1 cut(s) 697
XmiI GTMKAC 1 cut(s) 750
XspI CTAG 5 cut(s) 30, 452, 515, 638, 698
ZrmI AGTACT 1 cut(s) 146
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.